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The NCBO OBOF to OWL Mapping

Dilvan A. Moreira¹, Christopher J. Mungall², Nigam H. Shah³, Stuart Aitken⁴, John-Day Richter², Timothy Redmond³ & Mark A. Musen³

Correspondence: (Login to view email address)

1. University of Sao Paulo & Stanford Center for Biomedical Informatics Research
2. Lawrence Berkeley National Laboratory
3. Stanford Center for Biomedical Informatics Research
4. Centre for Intelligent Systems and their Applications, The University of Edinburgh

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Document Type:

Manuscript

Date:

Received 03 November 2009 20:16 UTC; Posted 04 November 2009

Subjects:

Bioinformatics

Tags:

• OBO format
• OWL
• Mapping
• NCBO
• ontologies
• GO
• OBO Foundry
• Protégé

Abstract:

Two of the most significant formats for biomedical ontologies are the Open Biomedical Ontologies Format (OBOF) and the Web Ontology Language (OWL). To make it possible to translate ontologies between these two representation formats, the National Center for Biomedical Ontology (NCBO) has developed a mapping between the OBOF and OWL formats as well as inter-conversion software. The goal was to allow the sharing of tools, ontologies, and associated data between the OBOF and Semantic Web communities.

OBOF does not have a formal grammar, so the NCBO had to capture its intended semantics to map it to OWL.

This official NCBO mapping was used to make all OBO Foundry ontologies available in OWL.

Availability: This mapping functionality can be embedded into OBO-Edit and Protégé-OWL ontology editors. This software is available at: http://bioontology.org/wiki/index.php/OboInOwl:Main_Page

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License:

This document is licensed to the public under the Creative Commons Attribution 3.0 License

How to cite this document:

Moreira, Dilvan, Mungall, Christopher, Shah, Nigam, Aitken, Stuart, Richter, John-Day, Redmond, Timothy, and Musen, Mark. The NCBO OBOF to OWL Mapping. Available from Nature Precedings <http://hdl.handle.net/10101/npre.2009.3938.1> (2009)

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